RnoINT0084028 @ rn6
Intron Retention
Gene
ENSRNOG00000053691 | Lama5
Description
laminin subunit alpha 5 [Source:RGD Symbol;Acc:621023]
Coordinates
chr3:175564807-175565934:-
Coord C1 exon
chr3:175565704-175565934
Coord A exon
chr3:175564921-175565703
Coord C2 exon
chr3:175564807-175564920
Length
783 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
CCCTACCTGCCTCTCTCCAGGAG
3' ss Score
10.25
Exon sequences
Seq C1 exon
GGGAACTTCCGGCACTTGGAGACTCACAACCCAGTGTCCCGAGAGGAACTCATGATGGTGCTGGCCGGCCTGGAGCAGCTGCAGATCCGTGCCCTCTTCTCACAGACCTCTTCCACTGTCTCCTTGCGTAGAGTGGTACTAGAGGTGGCCAGCGAAGCTGGCGGGGGGCCTCCAGCCAGCAATGTGGAACTGTGTATGTGCCCTGCCAACTACCGAGGGGACTCATGCCAG
Seq A exon
GTAAAGGGGTGAGGGTGGGCGCTTAGCCAGGAAGTTGCCCCACCCCCTGTAGCTCCTTCCCCGAGCATGCTCTGCCAGCATCTACTTTCTTTTTTTTTTTTTTTTTTTTTGTTCTTTTTTTCGGAGCTGGGGACCGAACCCAGGGCCTTGCGCTTCCTAGGCAAGCGCTCTACCACTGAGCTAAATCCCCAACCCCCAGCATCTACTTTCTACCCTGTGTCGTGTCTGCCCCTAAATGTCTTCCTCTCTGCTACCCTGCAGCCTTTGTACTTGCTCAGGTAGCTGCTCGGCCTTACCTGGTGTCCCAGCATTCACTACTGTCTACCCCTCCACACACACACAGCTGCTGCTACCCTGTCCATTGCTCACCCAGGACCCACACAACCAGCATCCCTGATCTACCCTGATTCCCACTCCCTGCTCCCTCTCTGCCTGAGGATCTGGGTGGACCAGCGTGATACCCAGGGAAGGTTTGTGACTGACCGCCGCTAGAAAACGATGTTCAGGGTGGAGAGAAGGTGGCTCTGGTCACCAGTCCCACAGACCGGTCATTCCTGAGCTGTGGTATCCATGTCTGGCACCGTGTTCATAAGTTTGGAGGCCTAACAGTCAGACATGGCCAGCAGTTCTGGGATCCAACTCACTATGATCCAGTGTGTGCTGTCTCTGAAGCCCTTGCTAGTGCAGGAAGGTCCCCAGAGGCTGATGTGTGAGTGGCCCACCTGGTCTGCCCAGCCTTGGGGTTGGCATCCAATCACTAATGCCCTACCTGCCTCTCTCCAG
Seq C2 exon
GAGTGCGCCCCTGGCTATTACCGGGACACCAAGGGTCTCTTCCTGGGCCGATGTGTCCCCTGCCAGTGCCATGGGCATTCAGACCGCTGCCTTCCTGGCTCTGGCACTTGTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000053691:ENSRNOT00000081226:41
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.006 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005213=Laminin_B=PD(45.3=80.5),PF0005319=Laminin_EGF=PU(48.6=23.4)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(45.9=44.7),PF0005319=Laminin_EGF=PU(35.4=44.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAACTTCCGGCACTTGGAGAC
R:
CACACAAGTGCCAGAGCCAG
Band lengths:
343-1126
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]